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PinPath

Visualization of Omics Data onto Pathway Diagrams

Bioconductor version: 3.24 · Package version: 0.99.4

PinPath enables flexible visualization of (omics) data onto pathways diagrams, allowing users to pinpoint where the relevant changes occur. It supports pathway diagrams from WikiPathways and KEGG, as well as custom GPML and KGML files. Data can be displayed on both native pathway layouts and network representations.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("PinPath")

Details

MaintainerJarno Koetsier <jarno.koetsier@gmail.com>
AuthorJarno Koetsier [aut, cre] (ORCID: <https://orcid.org/0000-0002-7981-1345>), Lars Eijssen [aut] (ORCID: <https://orcid.org/0000-0002-6473-2839>), Egon Willighagen [aut] (ORCID: <https://orcid.org/0000-0001-7542-0286>), Stichting Terre - The Dutch Rett Syndrome Foundation [fnd]
LicenseMIT + file LICENSE
URLhttps://github.com/SyNUM-lab/PinPath
Bug Reportshttps://github.com/SyNUM-lab/PinPath/issues
Downloads rank71
Source branchdevel
biocViewsGraphAndNetwork, KEGG, Metabolomics, Network, Pathways, Proteomics, Software, Transcriptomics, Visualization

Documentation

Download

Follow the installation instructions to use this package in your R session.

Source packagePinPath_0.99.4.tar.gz
Windows binary (x86_64)PinPath_0.99.4.zip
macOS binary (arm64)PinPath_0.99.4.tgz
macOS binary (x86_64)PinPath_0.99.4.tgz
Dependencies

Depends: R (>= 4.5.0)

Imports: grDevices, graphics, stats, XML, xml2, magrittr, dplyr, tidyr, stringr, magick, shape, grid, gridBase, svglite, AnnotationDbi, igraph, ggraph, ggplot2, BiocFileCache, BiocGenerics, rlang

Suggests: testthat (>= 3.0.0), BiocStyle, knitr, rmarkdown, rWikiPathways, org.Hs.eg.db, metaboliteIDmapping